Cyyr1 (cysteine and tyrosine rich 1) - Rat Genome Database

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Gene: Cyyr1 (cysteine and tyrosine rich 1) Rattus norvegicus
Analyze
Symbol: Cyyr1
Name: cysteine and tyrosine rich 1
RGD ID: 1359578
Description: Predicted to be located in membrane. Orthologous to human CYYR1 (cysteine and tyrosine rich 1); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cysteine and tyrosine-rich protein 1; cysteine/tyrosine-rich 1; LOC304138; similar to cysteine and tyrosine-rich protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Cyyr1Tn(sb-T2/Bart3)2.328Mcwi  
Genetic Models: F344-Cyyr1Tn(sb-T2/Bart3)2.328Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81138,044,003 - 38,150,391 (-)NCBIGRCr8
mRatBN7.21124,557,620 - 24,664,007 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1124,515,316 - 24,663,961 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1133,269,208 - 33,375,702 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01125,969,466 - 26,075,964 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01125,158,346 - 25,264,832 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01124,967,936 - 25,078,740 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1124,967,937 - 25,078,740 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01128,591,553 - 28,702,298 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41125,036,792 - 25,157,304 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11125,036,792 - 25,053,896 (-)NCBI
Celera1124,380,046 - 24,485,398 (-)NCBICelera
Cytogenetic Map11q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Comprehensive gene review and curation RGD comprehensive gene curation
5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Cyyr1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81138,044,003 - 38,150,391 (-)NCBIGRCr8
mRatBN7.21124,557,620 - 24,664,007 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1124,515,316 - 24,663,961 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1133,269,208 - 33,375,702 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01125,969,466 - 26,075,964 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01125,158,346 - 25,264,832 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01124,967,936 - 25,078,740 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1124,967,937 - 25,078,740 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01128,591,553 - 28,702,298 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41125,036,792 - 25,157,304 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11125,036,792 - 25,053,896 (-)NCBI
Celera1124,380,046 - 24,485,398 (-)NCBICelera
Cytogenetic Map11q11NCBI
CYYR1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382126,466,216 - 26,573,286 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2126,466,209 - 26,573,286 (-)EnsemblGRCh38hg38GRCh38
GRCh372127,838,535 - 27,945,605 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362126,760,399 - 26,867,452 (-)NCBINCBI36Build 36hg18NCBI36
Build 342126,760,399 - 26,867,452NCBI
Celera2113,021,968 - 13,129,017 (-)NCBICelera
Cytogenetic Map21q21.3NCBI
HuRef2113,243,091 - 13,350,122 (-)NCBIHuRef
CHM1_12127,399,962 - 27,506,990 (-)NCBICHM1_1
T2T-CHM13v2.02124,824,341 - 24,931,429 (-)NCBIT2T-CHM13v2.0
Cyyr1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391685,247,245 - 85,347,793 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1685,218,421 - 85,350,285 (-)EnsemblGRCm39 Ensembl
GRCm381685,452,858 - 85,550,905 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1685,421,533 - 85,553,397 (-)EnsemblGRCm38mm10GRCm38
MGSCv371685,456,488 - 85,550,618 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361685,345,439 - 85,439,569 (-)NCBIMGSCv36mm8
Celera1685,660,754 - 85,756,310 (-)NCBICelera
Cytogenetic Map16C3.3NCBI
cM Map1647.45NCBI
Cyyr1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540726,212,801 - 26,313,249 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495540726,208,335 - 26,313,566 (-)NCBIChiLan1.0ChiLan1.0
CYYR1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22222,655,138 - 22,762,149 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12117,515,642 - 17,622,682 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02112,905,184 - 13,012,200 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12126,291,718 - 26,398,521 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2126,291,718 - 26,398,521 (-)Ensemblpanpan1.1panPan2
CYYR1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13121,855,863 - 21,960,188 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3121,860,027 - 21,960,103 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3121,849,953 - 21,954,488 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03121,908,577 - 22,014,043 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3121,912,753 - 22,014,757 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13121,926,540 - 22,030,998 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03121,931,210 - 22,035,909 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03122,406,388 - 22,511,125 (-)NCBIUU_Cfam_GSD_1.0
Cyyr1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440497122,387,835 - 22,492,758 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366401,189,040 - 1,289,650 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366401,188,692 - 1,293,716 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CYYR1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13189,957,611 - 190,066,539 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113189,957,606 - 190,066,660 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213199,815,664 - 199,831,327 (-)NCBISscrofa10.2Sscrofa10.2susScr3
CYYR1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1265,645,101 - 65,749,566 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660718,306,863 - 8,412,436 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cyyr1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474514,436,162 - 14,529,351 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474514,431,709 - 14,529,408 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cyyr1
524 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:83
Count of miRNA genes:75
Interacting mature miRNAs:78
Transcripts:ENSRNOT00000002109
Prediction methods:Microtar, Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
1598842Glom10Glomerulus QTL 103.4kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)11135331169Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
2290451Scl58Serum cholesterol level QTL 583.48blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)111283104625121472Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
1600394Edcs1Endometrial carcinoma susceptibility QTL12.90.04uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)111897620824697116Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat

Markers in Region
AU046668  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21124,621,474 - 24,621,734 (+)MAPPERmRatBN7.2
Rnor_6.01125,028,549 - 25,028,808NCBIRnor6.0
Rnor_5.01128,652,822 - 28,653,081UniSTSRnor5.0
RGSC_v3.41125,105,875 - 25,106,134UniSTSRGSC3.4
Celera1124,443,599 - 24,443,858UniSTS
Cytogenetic Map11q11UniSTS
RH130150  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21124,557,666 - 24,557,886 (+)MAPPERmRatBN7.2
Rnor_6.01124,967,983 - 24,968,202NCBIRnor6.0
Rnor_5.01128,591,600 - 28,591,819UniSTSRnor5.0
RGSC_v3.41125,036,839 - 25,037,058UniSTSRGSC3.4
Celera1124,380,093 - 24,380,312UniSTS
RH 3.4 Map11101.5UniSTS
Cytogenetic Map11q11UniSTS
RH138693  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21124,646,276 - 24,646,468 (+)MAPPERmRatBN7.2
Rnor_6.01125,061,185 - 25,061,376NCBIRnor6.0
Rnor_5.01128,684,743 - 28,684,934UniSTSRnor5.0
RGSC_v3.41125,140,123 - 25,140,314UniSTSRGSC3.4
Celera1124,467,839 - 24,468,030UniSTS
RH 3.4 Map11104.5UniSTS
Cytogenetic Map11q11UniSTS


Genetic Models
This gene Cyyr1 is modified in the following models/strains:
F344-Cyyr1Tn(sb-T2/Bart3)2.328Mcwi    


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 19 17 8 12 8 2 2 7 18 12 11 2
Low 3 24 40 33 7 33 6 9 67 17 27 6
Below cutoff 2

Sequence


Ensembl Acc Id: ENSRNOT00000002109   ⟹   ENSRNOP00000002109
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1124,557,621 - 24,663,832 (-)Ensembl
Rnor_6.0 Ensembl1124,967,937 - 25,078,740 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000101180   ⟹   ENSRNOP00000091866
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1124,557,621 - 24,663,961 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000120065   ⟹   ENSRNOP00000082484
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1124,515,316 - 24,663,832 (-)Ensembl
RefSeq Acc Id: NM_001013980   ⟹   NP_001014002
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81138,044,003 - 38,150,213 (-)NCBI
mRatBN7.21124,557,620 - 24,663,832 (-)NCBI
Rnor_6.01124,967,936 - 25,078,740 (-)NCBI
Rnor_5.01128,591,553 - 28,702,298 (-)NCBI
RGSC_v3.41125,036,792 - 25,157,304 (-)RGD
Celera1124,380,046 - 24,485,398 (-)RGD
Sequence:
RefSeq Acc Id: XM_039088443   ⟹   XP_038944371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81138,067,627 - 38,150,391 (-)NCBI
mRatBN7.21124,581,234 - 24,664,007 (-)NCBI
RefSeq Acc Id: XM_063270601   ⟹   XP_063126671
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81138,067,118 - 38,150,388 (-)NCBI
RefSeq Acc Id: XR_010055961
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81138,067,118 - 38,150,391 (-)NCBI
RefSeq Acc Id: NP_001014002   ⟸   NM_001013980
- Peptide Label: precursor
- UniProtKB: Q5PQS5 (UniProtKB/Swiss-Prot),   A6JL64 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002109   ⟸   ENSRNOT00000002109
RefSeq Acc Id: XP_038944371   ⟸   XM_039088443
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000082484   ⟸   ENSRNOT00000120065
Ensembl Acc Id: ENSRNOP00000091866   ⟸   ENSRNOT00000101180
RefSeq Acc Id: XP_063126671   ⟸   XM_063270601
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5PQS5-F1-model_v2 AlphaFold Q5PQS5 1-165 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13698016
Promoter ID:EPDNEW_R8541
Type:multiple initiation site
Name:Cyyr1_1
Description:cysteine and tyrosine rich 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01125,078,751 - 25,078,811EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359578 AgrOrtholog
BioCyc Gene G2FUF-22079 BioCyc
Ensembl Genes ENSRNOG00000001544 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055002279 UniProtKB/Swiss-Prot
  ENSRNOG00060016867 UniProtKB/Swiss-Prot
  ENSRNOG00065006325 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000002109.8 UniProtKB/Swiss-Prot
  ENSRNOT00000101180.1 UniProtKB/TrEMBL
  ENSRNOT00000120065.1 UniProtKB/TrEMBL
  ENSRNOT00055003626 UniProtKB/Swiss-Prot
  ENSRNOT00060028852 UniProtKB/Swiss-Prot
  ENSRNOT00065009706 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7122930 IMAGE-MGC_LOAD
InterPro CYYR1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:304138 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:94044 IMAGE-MGC_LOAD
NCBI Gene 304138 ENTREZGENE
PANTHER CYSTEINE AND TYROSINE-RICH PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR38490 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CYYR1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Cyyr1 PhenoGen
RatGTEx ENSRNOG00000001544 RatGTEx
  ENSRNOG00055002279 RatGTEx
  ENSRNOG00060016867 RatGTEx
  ENSRNOG00065006325 RatGTEx
UniProt A0A8I5ZXB2_RAT UniProtKB/TrEMBL
  A0A8I6AGG6_RAT UniProtKB/TrEMBL
  A6JL64 ENTREZGENE, UniProtKB/TrEMBL
  CYYR1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-26 Cyyr1  cysteine/tyrosine-rich 1  Cyyr1  cysteine and tyrosine-rich protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Cyyr1  cysteine and tyrosine-rich protein 1  LOC304138  similar to cysteine and tyrosine-rich protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 LOC304138  similar to cysteine and tyrosine-rich protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL